Nanopore sequencing approach for immunoglobulin gene analysis in chronic lymphocytic leukemia

Abstract The evaluation of the somatic hypermutation of the clonotypic immunoglobulin heavy variable gene has become essential in the therapeutic management in chronic lymphocytic leukemia patients. European Research Initiative on Chronic Lymphocytic Leukemia promotes good practices and standardized...

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Autores principales:	Crescenzio Francesco Minervini, Cosimo Cumbo, Immacolata Redavid, Maria Rosa Conserva, Paola Orsini, Antonella Zagaria, Luisa Anelli, Nicoletta Coccaro, Giuseppina Tota, Luciana Impera, Elisa Parciante, Francesco Tarantini, Annamaria Giordano, Giorgina Specchia, Pellegrino Musto, Francesco Albano
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/9fb8cdff84594f8c80b607a419cdaf59
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spelling	oai:doaj.org-article:9fb8cdff84594f8c80b607a419cdaf592021-12-02T15:29:03ZNanopore sequencing approach for immunoglobulin gene analysis in chronic lymphocytic leukemia10.1038/s41598-021-97198-32045-2322https://doaj.org/article/9fb8cdff84594f8c80b607a419cdaf592021-09-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-97198-3https://doaj.org/toc/2045-2322Abstract The evaluation of the somatic hypermutation of the clonotypic immunoglobulin heavy variable gene has become essential in the therapeutic management in chronic lymphocytic leukemia patients. European Research Initiative on Chronic Lymphocytic Leukemia promotes good practices and standardized approaches to this assay but often they are labor-intensive, technically complex, with limited in scalability. The use of next-generation sequencing in this analysis has been widely tested, showing comparable accuracy and distinct advantages. However, the adoption of the next generation sequencing requires a high sample number (run batching) to be economically convenient, which could lead to a longer turnaround time. Here we present data from nanopore sequencing for the somatic hypermutation evaluation compared to the standard method. Our results show that nanopore sequencing is suitable for immunoglobulin heavy variable gene mutational analysis in terms of sensitivity, accuracy, simplicity of analysis and is less time-consuming. Moreover, our work showed that the development of an appropriate data analysis pipeline could lower the nanopore sequencing error rate attitude.Crescenzio Francesco MinerviniCosimo CumboImmacolata RedavidMaria Rosa ConservaPaola OrsiniAntonella ZagariaLuisa AnelliNicoletta CoccaroGiuseppina TotaLuciana ImperaElisa ParcianteFrancesco TarantiniAnnamaria GiordanoGiorgina SpecchiaPellegrino MustoFrancesco AlbanoNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-7 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Crescenzio Francesco Minervini Cosimo Cumbo Immacolata Redavid Maria Rosa Conserva Paola Orsini Antonella Zagaria Luisa Anelli Nicoletta Coccaro Giuseppina Tota Luciana Impera Elisa Parciante Francesco Tarantini Annamaria Giordano Giorgina Specchia Pellegrino Musto Francesco Albano Nanopore sequencing approach for immunoglobulin gene analysis in chronic lymphocytic leukemia
description	Abstract The evaluation of the somatic hypermutation of the clonotypic immunoglobulin heavy variable gene has become essential in the therapeutic management in chronic lymphocytic leukemia patients. European Research Initiative on Chronic Lymphocytic Leukemia promotes good practices and standardized approaches to this assay but often they are labor-intensive, technically complex, with limited in scalability. The use of next-generation sequencing in this analysis has been widely tested, showing comparable accuracy and distinct advantages. However, the adoption of the next generation sequencing requires a high sample number (run batching) to be economically convenient, which could lead to a longer turnaround time. Here we present data from nanopore sequencing for the somatic hypermutation evaluation compared to the standard method. Our results show that nanopore sequencing is suitable for immunoglobulin heavy variable gene mutational analysis in terms of sensitivity, accuracy, simplicity of analysis and is less time-consuming. Moreover, our work showed that the development of an appropriate data analysis pipeline could lower the nanopore sequencing error rate attitude.
format	article
author	Crescenzio Francesco Minervini Cosimo Cumbo Immacolata Redavid Maria Rosa Conserva Paola Orsini Antonella Zagaria Luisa Anelli Nicoletta Coccaro Giuseppina Tota Luciana Impera Elisa Parciante Francesco Tarantini Annamaria Giordano Giorgina Specchia Pellegrino Musto Francesco Albano
author_facet	Crescenzio Francesco Minervini Cosimo Cumbo Immacolata Redavid Maria Rosa Conserva Paola Orsini Antonella Zagaria Luisa Anelli Nicoletta Coccaro Giuseppina Tota Luciana Impera Elisa Parciante Francesco Tarantini Annamaria Giordano Giorgina Specchia Pellegrino Musto Francesco Albano
author_sort	Crescenzio Francesco Minervini
title	Nanopore sequencing approach for immunoglobulin gene analysis in chronic lymphocytic leukemia
title_short	Nanopore sequencing approach for immunoglobulin gene analysis in chronic lymphocytic leukemia
title_full	Nanopore sequencing approach for immunoglobulin gene analysis in chronic lymphocytic leukemia
title_fullStr	Nanopore sequencing approach for immunoglobulin gene analysis in chronic lymphocytic leukemia
title_full_unstemmed	Nanopore sequencing approach for immunoglobulin gene analysis in chronic lymphocytic leukemia
title_sort	nanopore sequencing approach for immunoglobulin gene analysis in chronic lymphocytic leukemia
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/9fb8cdff84594f8c80b607a419cdaf59
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Nanopore sequencing approach for immunoglobulin gene analysis in chronic lymphocytic leukemia

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